Journal
BRIEFINGS IN BIOINFORMATICS
Volume 19, Issue 5, Pages 803-810Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bib/bbx014
Keywords
circRNA; multiple seed matching; maximum likelihood estimation; multiple threads
Funding
- National Natural Science Foundation of China [91640117, 91531306]
- National Key RD Program [2016YFC1200804]
- Strategic Priority Research Program of the Chinese Academy of Sciences [XDB13000000]
Ask authors/readers for more resources
Computational detection methods have been widely used in studies on the biogenesis and the function of circular RNAs (circRNAs). However, all of the existing tools showed disadvantages on certain aspects of circRNA detection. Here, we propose an improved multithreading detection tool, CIRI2, which used an adapted maximum likelihood estimation based on multiple seed matching to identify back-spliced junction reads and to filter false positives derived from repetitive sequences and mapping errors. We established objective assessment criteria based on real data from RNase R-treated samples and systematically compared 10 circular detection tools, which demonstrated that CIRI2 outperformed its previous version CIRI and all other widely used tools, featured with remarkably balanced sensitivity, reliability, duration and RAM usage.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available